Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001275.1 Corchorus capsularis cultivar CVL-1 contig01275, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 9210
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33


Found at i:6401 original size:6 final size:6

Alignment explanation


    Indices: 6392--6441  Score: 57
    Period size: 6  Copynumber: 8.5  Consensus size: 6

       6382 GGGAATGAAT

                             *    * *    *                         
       6392 AAAAGA AAAA-A AAATGA AGATGA AGAAGA AAAAGA AAAAGA AAAAGA
          1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA

               
       6439 AAA
          1 AAA

       6442 TTCCGGAGAC


Statistics
Matches: 39,  Mismatches: 4, Indels: 2
        0.87            0.09        0.04

Matches are distributed among these distances:
   5    4  0.10
   6   35  0.90

ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04


Consensus pattern (6 bp):   
AAAAGA

Found at i:6827 original size:2 final size:2

Alignment explanation


    Indices: 6820--6846  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       6810 AATAATATTT

                                                    
       6820 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

       6847 TCACCCAATT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:9180 original size:2 final size:2

Alignment explanation


    Indices: 9173--9210  Score: 76
    Period size: 2  Copynumber: 19.0  Consensus size: 2

       9163 ATTTATCTAA

                                                                    
       9173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   36  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.